RnoINT0022657 @ rn6
Intron Retention
Gene
ENSRNOG00000021203 | Atl3
Description
atlastin GTPase 3 [Source:RGD Symbol;Acc:1309871]
Coordinates
chr1:222784167-222785972:+
Coord C1 exon
chr1:222784167-222784238
Coord A exon
chr1:222784239-222785540
Coord C2 exon
chr1:222785541-222785972
Length
1302 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TGTGTTCTTGTCATTTTTAGATT
3' ss Score
12.08
Exon sequences
Seq C1 exon
GCCACTGCTGAAGCCAACAACCTGGCAGCCGCAGCCTCTGCCAAAGACATTTACTACAGCAGCATGGAGGAG
Seq A exon
GTACGTGGGCAGCCCTGTTCTGAGGCGGCACTCCCTACGCACGGCTACTGCACGGCTACTGCACGGCTACTGACTCCAGAGGCCCAGCCTGGATCCCCTCAGTGTAGCCTTTTTGTTTGTTAGAGACAGAGGTCTATGTAACCGGCTGGCCTGAGGATCCTTGTGCCAGTGGAGGGTGTCTGACTGCACAGCCTGCACCTCACTAATGCTGCTCCACAGGAATGTGCTTTAACAGTTTGTTTTCACCCATGAGTCCTTGTGTGTGCATGCCACATAGACATGGTGTTCATGGAGGCCAGAAGAGGCATGGGAGCCTGTGAAGCTAAAGCTCCAGGTGATTGCGAATGGCCTAACGTGTGTGTTAGAGATTCAGCCTGCTTGTCTATAAAAGCTGGAAGCCCTCCATTAACTTCTGAGCTGTCGCCTCTTAAGATGATGAGACAGAAGCTGTCTTCCAGGTCACCCTAGTAATTGGGATGTTCGGATTATTACATTTTAATTTTTCTTTTCTTTTGAAACAGAGCCTTTCTATGTAATTGGGATCTTCTAGTTGTTTTTATTTTTCTCAAGATGGAGTCCAAGTTGGTTGCAAATTCATAGCAATTTTTTTTGTCTCAGTCTCCTGAGTCCCAGATTACAAATGTGTGCTGCCATATCTCTTAAGAGTTTCTGTGTATATCTCTGTACCTGTAGGTGCCTGAATGTACCAGAGTCACACATCGACCTCTTGGAGCCTTAGTACAGGAGGTTTTGAGCTTCATGATGTGGGTGTGGGGAACTGAACTCTGGTCCTGTGAGAACAACAAGTGTTCTTAGCTAGTAAGCCATCTCTCCAGCCTCCCAGGGTCTGGTTATTAACCATTTCTAACCAAGCTTCTAATTGATTTTTGTATTTTTATACAATGTCTGGCTTTGACCTTGGATGTTTGTCTTTTCTGGCTTTTCTGACTTGTCATTTAAGCAGAATCTCGTGTAGCTTAGGTGGCCTCAAGCTCTTCAGGTAGCTGAGGATGATCTTGACTTTTCTGATCCTTCTGTAACTGCTTGTGGAGGGTCAGGACTACAGATCTGTGTCACCATACTGATTTATATGGTAGTAGGATTAAACCGAGGCCTCTGTGCATGTAAGGCAAATACTTTAACATGTAGGTTATATCCTTAGTCTCCCTTGAATATTTTCTGAAGTTAATTTCTAAGCTTTTTTTCTAAACTCTTAAGAGCATTCTAATCTTTACTGTGTCTTTTTACTTATTTTATTTGGCATGTACAAGAATTTTCAGCGTGTGTTCTTGTCATTTTTAG
Seq C2 exon
ATTTGTGGGGGAGAGAAACCTTATTTGTCTCCAGACATTTTAGAAGAAAAGCACCAAGAATTCAAACAACTTGCTCTGGACCACTTTAAGAAGACCAAAAAGATGGGTGGGAAGGATTTTAGCTTCCGTTACCAGCAGGAGCTAGAGGAGGAAATCACAGAACTGTATGAGAACTTCTGCAAACACAATGGTAGCAAGAACGTCTTCAGCACCTTCCGAACCCCTGCAGTTCTGTTCACAGGCATAGCTGTGTTGTACATAGCCTCGGGCTTAACCGGCTTCATCGGGCTTGAGGTTGTGGCTCAGCTGTTCAACTGTATGGTTGGACTGCTGTTGATAGCACTCCTTACCTGGGGGTACATCAGATACTCCGGGCAGTATCTTGAGCTGGGTGGAGCTATTGACTCTGGTGCAGCGTATGTGTTAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021203:ENSRNOT00000028787:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF028419=GBP_C=FE(18.1=100)
A:
NA
C2:
PF028419=GBP_C=PD(53.5=47.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCTGAAGCCAACAACCTG
R:
CGATGAAGCCGGTTAAGCCC
Band lengths:
355-1657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]